| # | Title | Rating | Length |
|---|
| 1 | Prologue | 2.75 | 1:26 |
| 2 | Title | 3.25 | 2:25 |
| 3 | Another Day in the Lab | 2.75 | 1:59 |
| 4 | Evil Machinations | 2.75 | 1:35 |
| 5 | The Courage to Fight | 3 | 1:47 |
| 6 | Stage Select | 3.25 | 1:48 |
| 7 | Game Start | 3 | 0:11 |
| 8 | Block Man Stage | 3.5 | 3:34 |
| 9 | Acid Man Stage | 2.75 | 3:32 |
| 10 | Pile Man Stage | 3.25 | 3:34 |
| 11 | Rubber Man Stage | 3 | 2:06 |
| 12 | Fuse Man Stage | 3.25 | 2:28 |
| 13 | Tundra Man Stage | 3 | 3:14 |
| 14 | Torch Man Stage | 3 | 2:37 |
| 15 | Blast Man Stage | 3 | 2:29 |
| 16 | Boss | 2.75 | 2:15 |
| 17 | Stage Clear | 2.25 | 0:11 |
| 18 | Get a Weapon | 2.75 | 1:56 |
| 19 | Shop | 2.5 | 1:31 |
| 20 | Regretful Memories | 2.25 | 2:29 |
| 21 | Dr. Wily Castle | | 0:10 |
| 22 | Dr. Wily Stage Map | 2.5 | 1:36 |
| 23 | Dr. Wily Stage | 3.25 | 3:04 |
| 24 | Dr. Wily Stage Boss | 3 | 2:36 |
| 25 | Dr. Wily Machine | 3 | 1:59 |
| 26 | Dr. Wily Capsule | 1.5 | 0:07 |
| 27 | Last Battle | 2.75 | 2:18 |
| 28 | Wily's Last Resort | 2.75 | 1:06 |
| 29 | Staff Roll 1 | 2.75 | 1:34 |
| 30 | Staff Roll 2 | 3 | 3:07 |
| 31 | Game Menu | 3.25 | 3:09 |
| 32 | Challenges | 3.25 | 2:23 |
| 33 | Challenges (Time Limit Ver.) | | 1:11 |
| 34 | Challenges: Results | 2.25 | 1:09 |
| 35 | Game Over | 1.5 | 0:08 |
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